Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	Algorithm
GPR39	2863	hgsc.bcm.edu	37	2	133175021	133175021	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	GPR39,NS,carcinoma,0,1	GPR39	NM_001508	exon1	c.G406A	p.A136T	TACATCGCCATCT	.	74.0	3.0	62.0	0.0	.	0	1	Atlas-SNP
CKAP5	9793	hgsc.bcm.edu	37	11	46819368	46819368	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_001008938	exon11	c.C1325A	p.A442D	AGTGCAGCACAAA	.	114.0	7.0	151.0	0.0	.	.	.	Atlas-SNP
EXOSC1	51013	hgsc.bcm.edu	37	10	99205531	99205531	+	Silent	SNP	C	C	T	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_016046	exon2	c.G105A	p.S35S	AAGCGACGAAAAG	.	39.0	11.0	50.0	0.0	.	.	.	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49427679	49427679	+	Silent	SNP	C	C	T	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	MLL2_ENST00000301067,NS,carcinoma,0,2	MLL2_ENST00000301067	NM_003482	exon39	c.G10809A	p.Q3603Q	CTGCTGCTGTTGT	.	31.0	3.0	26.0	0.0	.	0	2	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	15765	15765	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	ENST00000361789	exon1	c.G1019A	p.G340E	TCGGAGGACAACC	.	12.0	10.0	23.0	0.0	.	.	.	Atlas-SNP
CALCOCO1	57658	hgsc.bcm.edu	37	12	54115831	54115831	+	Missense_Mutation	SNP	G	G	T	rs146731373	bycluster;alternate_allele	TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	CALCOCO1,NS,carcinoma,0,1	CALCOCO1	NM_020898	exon5	c.C587A	p.T196K	AGCTCCGTGTGCT	.	45.0	2.0	43.0	0.0	.	0	1	Atlas-SNP
RPGRIP1L	23322	hgsc.bcm.edu	37	16	53682980	53682980	+	Silent	SNP	G	G	T	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_001127897	exon16	c.C2200A	p.R734R	TTAATCGGAACCA	.	88.0	4.0	114.0	0.0	.	.	.	Atlas-SNP
KIAA1279	26128	hgsc.bcm.edu	37	10	70760227	70760227	+	Silent	SNP	A	A	C	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_015634	exon2	c.A474C	p.A158A	AACTGCACAGGCT	.	33.0	11.0	27.0	0.0	.	.	.	Atlas-SNP
GABRA1	2554	hgsc.bcm.edu	37	5	161277838	161277838	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_001127643	exon3	c.T22C	p.S8P	GGTCTGTCTGACT	.	53.0	8.0	69.0	0.0	.	.	.	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511524	195511524	+	Silent	SNP	G	G	A	rs201351734	bycluster;byfrequency	TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	MUC4_ENST00000463781,NS,carcinoma,-1,5	MUC4_ENST00000463781	NM_018406	exon2	c.C6927T	p.D2309D	GGAAGCGTCGGTG	.	59.0	3.0	61.0	0.0	0.033	-1	5	Atlas-SNP
SCAPER	49855	hgsc.bcm.edu	37	15	76668615	76668615	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_020843	exon28	c.G3743T	p.R1248L	ATGTGCCGGAATG	.	68.0	7.0	70.0	0.0	.	.	.	Atlas-SNP
CLTC	1213	hgsc.bcm.edu	37	17	57721790	57721790	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_004859	exon2	c.A196G	p.I66V	AGACCAATTTCAG	.	125.0	33.0	106.0	0.0	.	.	.	Atlas-SNP
PGBD2	267002	hgsc.bcm.edu	37	1	249211094	249211094	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_170725	exon3	c.C311G	p.A104G	AGAAAGCAGTTGT	.	65.0	18.0	52.0	0.0	.	.	.	Atlas-SNP
EFCAB13	124989	hgsc.bcm.edu	37	17	45438806	45438806	+	Missense_Mutation	SNP	G	G	A	rs377500863		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_152347	exon10	c.G724A	p.V242M	GATGACGTGTTTG	.	151.0	8.0	142.0	0.0	.	.	.	Atlas-SNP
PCDHB4	56131	hgsc.bcm.edu	37	5	140503155	140503155	+	Silent	SNP	G	G	T	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	PCDHB4,caecum,carcinoma,+1,1	PCDHB4	NM_018938	exon1	c.G1575T	p.A525A	GCAGGCGTTCGAG	.	33.0	4.0	40.0	2.0	.	+1	1	Atlas-SNP
TSPEAR	54084	hgsc.bcm.edu	37	21	45953609	45953609	+	Silent	SNP	G	G	T	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_144991	exon3	c.C501A	p.G167G	GAAGACGCCTGCG	.	82.0	4.0	40.0	0.0	.	.	.	Atlas-SNP
SYTL4	94121	hgsc.bcm.edu	37	X	99945112	99945112	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_001129896	exon9	c.G768T	p.M256I	AAATATCATCTCA	.	171.0	12.0	130.0	0.0	.	.	.	Atlas-SNP
MLLT3	4300	hgsc.bcm.edu	37	9	20414373	20414373	+	Silent	SNP	G	G	A	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	MLLT3,NS,carcinoma,0,4	MLLT3	NM_004529	exon5	c.C471T	p.S157S	GCTGCTGCTACTG	.	47.0	4.0	33.0	2.0	.	0	4	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	37	2	32667481	32667481	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_016252	exon19	c.G4196T	p.S1399I	GACGAAGTATAGC	.	90.0	9.0	57.0	0.0	.	.	.	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	37	1	10394661	10394661	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_015074	exon26	c.G2870A	p.R957Q	AAGTGCGGGGATT	.	73.0	16.0	75.0	0.0	.	.	.	Atlas-SNP
SCAF1	58506	hgsc.bcm.edu	37	19	50148669	50148669	+	Splice_Site	SNP	G	G	A	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	SCAF1,NS,carcinoma,0,1	SCAF1	NM_021228	exon3	c.166+1G>A	.	ATAAAGGTATGGC	.	163.0	31.0	125.0	0.0	.	0	1	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100933354	100933354	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-YU-AA61-01A-11D-A435-10	TCGA-YU-AA61-10A-01D-A438-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a045392a-1a5d-4642-8bd1-f1671db2fd63	1a30d3c6-2e38-4057-b0a9-4509f5a563a4	.	.	NM_000926	exon4	c.A2036T	p.Q679L	ATGTCTTGACCTG	.	102.0	12.0	123.0	0.0	.	.	.	Atlas-SNP
